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Firstly, I think you should be using 'I'not 'we' as you alone are actually doing the thanking. As it comes after a preposition, 'me'would be better than 'I', but 'on behalf of me and John' sounds a bit strange and it's very common to say 'on behalf of myself and John, I...''
Using 'on behalf of' 
Re: Using 'on behalf of' 
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